Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Cyclic - C3  (3D View)
Global Stoichiometry: Hetero 6-mer - A3B3 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 58880.56 
• Atom Count: 4107 
• Residue Count: 499 
• Unique protein chains: 2

4O5N

Crystal structure of A/Victoria/361/2011 (H3N2) influenza virus hemagglutinin

• DOI: 10.2210/pdb4O5N/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Influenza A virus
• Expression System: Trichoplusia ni


• Deposited: 2013-12-19 Released: 2014-04-16 
• Deposition Author(s): Lee, P.S., Wilson, I.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 0.185 
• R-Value Work: 0.165 

Literature

Receptor mimicry by antibody F045-092 facilitates universal binding to the H3 subtype of influenza virus.

Lee, P.S., Ohshima, N., Stanfield, R.L., Yu, W., Iba, Y., Okuno, Y., Kurosawa, Y., Wilson, I.A.

(2014) Nat Commun 5: 3614-3614

• PubMed: 24717798 
• DOI: 10.1038/ncomms4614
• Primary Citation of Related Structures:  
  4O5L, 4O5I, 4O58


• PubMed Abstract: 
  

Influenza viruses present a significant health challenge each year, as in the H3N2 epidemic of 2012-2013. Here we describe an antibody, F045-092, that possesses broadly neutralizing activity against the entire H3 subtype and accommodates the natural variation and additional glycosylation in all strains tested from 1963 to 2011. Crystal structures of F045-092 in complex with HAs from 1975 and 2011 H3N2 viruses reveal the structural basis for its neutralization breadth through insertion of its 23-residue HCDR3 into the receptor-binding site that involves striking receptor mimicry. F045-092 extends its recognition to divergent subtypes, including H1, H2 and H13, using the enhanced avidity of its IgG to overcome lower-affinity Fab binding, as observed with other antibodies that target the receptor-binding site. This unprecedented level of antibody cross-reactivity against the H3 subtype can potentially inform on development of a pan-H3 vaccine or small-molecule therapeutics.

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Organizational Affiliation: 

1] Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, California 92037, USA [2] The Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla, California 92037, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Hemagglutinin HA1 chain	A	323	Influenza A virus	Mutation(s): 0  Gene Names: HA
Find proteins for A0A097PF39 (Influenza A virus) Go to UniProtKB:  A0A097PF39

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Hemagglutinin HA2 chain	B	176	Influenza A virus	Mutation(s): 0  Gene Names: HA
Find proteins for L0HR89 (Influenza A virus) Go to UniProtKB:  L0HR89

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
GOL	A, B	GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
BMA	A	BETA-D-MANNOSE C6 H12 O6 WQZGKKKJIJFFOK-RWOPYEJCSA-N
PEG	B	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
NAG	A	N-ACETYL-D-GLUCOSAMINE C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 0.185 
• R-Value Work: 0.165 
• Space Group: H 3 2

Unit Cell:

Length (Å)	Angle (°)
a = 100.687	α = 90.00
b = 100.687	β = 90.00
c = 383.307	γ = 120.00

Software Package:

Software Name	Purpose
Blu-Ice	data collection
XDS	data scaling
PHASER	phasing
XDS	data reduction
PHENIX	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2013-12-19 
• Released Date: 2014-04-16 
• Deposition Author(s): Lee, P.S., Wilson, I.A.

Revision History 

• Version 1.0: 2014-04-16
  Type: Initial release
• Version 1.1: 2014-05-14
  Type: Database references